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Related Concept Videos

General Transcription Factors

General Transcription Factors

Tissue-specific transcription factors contribute to diverse cellular functions in mammals. For example, the gene for beta globin, a major component of hemoglobin, is present in all cells of the body. However, it is only expressed in red blood cells because the transcription factors that can bind to the promoter sequences of the beta globin gene are only expressed in these cells. Tissue-specific transcription factors also ensure that mutations in these factors may impair only the function of...

Transcription Factors

Transcription Factors

Transcription Factors

Transcription Factors

Tissue-specific transcription factors contribute to diverse cellular functions in mammals. For example, the gene for beta globin, a major component of hemoglobin, is present in all cells of the body. However, it is only expressed in red blood cells because the transcription factors that can bind to the promoter sequences of the beta globin gene are only expressed in these cells. Tissue-specific transcription factors also ensure that mutations in these factors may impair only the function of...

Combinatorial Gene Control

Combinatorial Gene Control

Combinatorial gene control is the synergistic action of several transcriptional factors to regulate the expression of a single gene. The absence of one or more of these factors may lead to a significant difference in the level of gene expression or repression.
The expression of more than 30,000 genes is controlled by approximately 2000-3000 transcription factors. This is possible because a single transcription factor can recognize more than one regulatory sequence. The specificity in gene...

Master Transcription Regulators

Master Transcription Regulators

Master transcription regulators are regulatory proteins that are predominantly responsible for regulating the expression of multiple genes. Often these genes work in concert to drive a complex process. Activation of a master transcription regulator can lead to a cascade of transcriptional activation necessary for that outcome. These regulators can directly bind to the regulatory sequences of the various genes involved, or they can indirectly regulate transcription by binding to regulatory...

Cooperative Binding of Transcription Regulators

Cooperative Binding of Transcription Regulators

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Related Experiment Video

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Enhanced Yeast One-hybrid Screens To Identify Transcription Factor Binding To Human DNA Sequences

Enhanced Yeast One-hybrid Screens To Identify Transcription Factor Binding To Human DNA Sequences

Published on: February 11, 2019

TACO: a general-purpose tool for predicting cell-type-specific transcription factor dimers.

Aleksander Jankowski, Shyam Prabhakar¹, Jerzy Tiuryn

¹Computational and Systems Biology, Genome Institute of Singapore, 60 Biopolis Street, Singapore 138672, Singapore. prabhakars@gis.a-star.edu.sg.

|March 20, 2014

Summary

We developed TACO, a new software tool to identify transcription factor (TF) dimers. TACO accurately predicts cell-type-specific TF dimers by analyzing motif complexes in regulatory elements.

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Last Updated: May 2, 2026

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Published on: February 11, 2019

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Published on: February 26, 2015

Area of Science:

Genomics
Molecular Biology
Bioinformatics

Background:

Transcription factor (TF) dimers play a key role in DNA binding specificity.
Current methods for identifying TF dimers are limited and may miss many existing dimers.

Purpose of the Study:

To introduce TACO (Transcription factor Association from Complex Overrepresentation), a novel software tool for predicting TF dimers.
To enable the discovery of cell-type-specific TF dimers from genome-wide regulatory element data.

Main Methods:

TACO analyzes genome-wide regulatory elements to identify enriched motif complexes.
The tool accommodates overlapping motifs, a common feature of TF dimers.
Performance was benchmarked against known dimers and applied to large datasets (152 DNase-seq, 94 ChIP-seq).

Main Results:

TACO accurately predicts transcription factor dimers, outperforming existing tools.
The software successfully identified cell-type-specific TF dimers across diverse genomic datasets.
TACO is the first tool capable of handling overlapping motifs in TF dimer prediction.

Conclusions:

A general principle for TF-TF-DNA ternary complex structure was uncovered.
The flexibility of these complexes is correlated with inter-motif spacing.